miRNA display CGI


Results 1 - 20 of 76 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28114 3' -53.2 NC_005887.1 + 416 0.68 0.624033
Target:  5'- uCAGcUCACCGcgcACAUGcgacgGCUCGCGCa -3'
miRNA:   3'- cGUCuAGUGGC---UGUACag---CGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 977 0.69 0.562938
Target:  5'- aGguGAUCGCCGACAcgcgcaauugccgGcCGCcgugCGCGCg -3'
miRNA:   3'- -CguCUAGUGGCUGUa------------CaGCGa---GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 1468 0.74 0.320588
Target:  5'- aGCAGGagcccgaCGCCGACggcGUGcggCGCUCGCGCg -3'
miRNA:   3'- -CGUCUa------GUGGCUG---UACa--GCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 1625 0.73 0.337153
Target:  5'- cCAGGUCGCCGaACAUGUCGagccaguccUUCGCGg -3'
miRNA:   3'- cGUCUAGUGGC-UGUACAGC---------GAGCGUg -5'
28114 3' -53.2 NC_005887.1 + 2484 0.72 0.381241
Target:  5'- cGCGGAUCAUCGACGgcgagcccgGcCuGCUCGUGCa -3'
miRNA:   3'- -CGUCUAGUGGCUGUa--------CaG-CGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 3953 0.67 0.680818
Target:  5'- cGCAGAagcUCGUCGACccgccGUUGCUCGCGa -3'
miRNA:   3'- -CGUCU---AGUGGCUGua---CAGCGAGCGUg -5'
28114 3' -53.2 NC_005887.1 + 3990 0.66 0.757868
Target:  5'- cGCGGAuguuggUCuuCGcCAUGUCGUUCGC-Ca -3'
miRNA:   3'- -CGUCU------AGugGCuGUACAGCGAGCGuG- -5'
28114 3' -53.2 NC_005887.1 + 4219 0.71 0.480134
Target:  5'- cGCAGGagAaaGGCGUGcUGCUCGCGCc -3'
miRNA:   3'- -CGUCUagUggCUGUACaGCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 4252 0.66 0.736351
Target:  5'- aGCAcuucGGUCGCgGuCAUGUCGC-CGCu- -3'
miRNA:   3'- -CGU----CUAGUGgCuGUACAGCGaGCGug -5'
28114 3' -53.2 NC_005887.1 + 4372 0.7 0.512195
Target:  5'- gGCAGcUgGCCGGCcucggcgaggAUGUCGacCUCGCGCg -3'
miRNA:   3'- -CGUCuAgUGGCUG----------UACAGC--GAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 4477 0.66 0.768427
Target:  5'- uGCAgGAUCGCCG-CGccuUCGCcggCGCGCa -3'
miRNA:   3'- -CGU-CUAGUGGCuGUac-AGCGa--GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 5212 0.66 0.725418
Target:  5'- aGCGGcgCGCCGAC--GUCGggCaGCGCg -3'
miRNA:   3'- -CGUCuaGUGGCUGuaCAGCgaG-CGUG- -5'
28114 3' -53.2 NC_005887.1 + 5248 1.11 0.000869
Target:  5'- uGCAGAUCACCGACAUGUCGCUCGCACc -3'
miRNA:   3'- -CGUCUAGUGGCUGUACAGCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 6277 0.67 0.714386
Target:  5'- aCAGGcCACCG-CAcGUCGgUUCGCACc -3'
miRNA:   3'- cGUCUaGUGGCuGUaCAGC-GAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 6392 0.67 0.680818
Target:  5'- gGCAGAaCGCCGcCGUacaGCUUGCGCc -3'
miRNA:   3'- -CGUCUaGUGGCuGUAcagCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 6836 0.74 0.328793
Target:  5'- cGCGGGUCugcaacAUCGACGUGUCGgacCUCGCGa -3'
miRNA:   3'- -CGUCUAG------UGGCUGUACAGC---GAGCGUg -5'
28114 3' -53.2 NC_005887.1 + 7075 0.68 0.620618
Target:  5'- uGCAGcgCACCGACg---CGCuccugaacacggaaUCGCGCg -3'
miRNA:   3'- -CGUCuaGUGGCUGuacaGCG--------------AGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 8494 0.66 0.757868
Target:  5'- cGCGGAUCGCuCGGCGauagccugGUCGUgcucggcccaCGCGCc -3'
miRNA:   3'- -CGUCUAGUG-GCUGUa-------CAGCGa---------GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 9101 0.69 0.578668
Target:  5'- cGCGGG-CACCGGCGccguuacucugGUCGCaaGCGCa -3'
miRNA:   3'- -CGUCUaGUGGCUGUa----------CAGCGagCGUG- -5'
28114 3' -53.2 NC_005887.1 + 9703 0.74 0.328793
Target:  5'- gGCAGA-CACCGACA--UCGCgagccaccggUCGCGCa -3'
miRNA:   3'- -CGUCUaGUGGCUGUacAGCG----------AGCGUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.